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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...catatgtttttaaattaattagctcacattacataatgtgcgaatgtgtttttatggttaagctatagtcttgattcagattcacttctatttgattcagCTATTGGAGATGCTTCTGAATAATTGCGGAGAGCCTGTCCATAGGCAGGTCATTGATAATGGCCTTCTTCCAATACTTGTGAAGATAGTGAAGAAAAAG

Basic information

species Zea mays
transcript GRMZM5G834205_T02
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G834205_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os08g01740.2 (Oryza sativa), 3'ss of exon 3
catatgtttttaaattaattagctcacattaca-taatgtgcgaatgtgtttttatggttaagctatagtcttgattcagattcact--tctatttgattcagCTATTGGAGATGCTTCTGAATAATTGCGGAGAGCCTGTCCATAGGCAGGTCATTGATAATGGCCTTCTTCCAATACTTGTGAAGATAGTGAAGAAAAAG
      |   ||    |  |   | |  |   | |  ||||   || | | | | |  |    | |||   || ||   |||| | |   ||||||| |  |||| || || |||||  ||||||| |||||||| ||| |||| | ||||||||||||||| || ||||| || |||||||||||||| ||||||||||||
---tcttccatagggaagcttattgaagtcgtaattgtgtggatatctatatcttttttgttaccatacctttaatcttgatttattgtgctatttgttgtagCTGTTAGAAATGCTCATGAATAACTGCGGAGAACCTATCCACAAGCAGGTCATTGATAACGGTCTTCTCCCGATACTTGTGAAGATTGTGAAGAAAAAG

upper sequence: GRMZM5G834205_T01 (Zea mays), 3'ss of exon 2
lower sequence: Vv07s0031g03190.t01 (Vitis vinifera), 3'ss of exon 2
catatgtttttaaattaatt--agctcacattacataatgtgcgaatgtgtttttatggttaagctatagtcttgat--tcagattcacttctatttgattcagCTATTGGAGATGCTTCTGAATAATTGCGGAGAGCCTGTCCATAGGCAGGTCATTGATAATGGCCTTCTTCCAATACTTGTGAAGATAGTGAAGAAAAAG
 ||||| |  | || |   |  |  ||  |  ||  |   |||    ||  ||      ||  ||| |     |||   |  ||||  | | |  ||  | ||| ||||||||||| |  ||||||||   ||||| ||||| || || ||||| ||||||||||| || || || ||||| ||||||||||| |||||||||
-atatggtcatgaaatggctctacatcttagcactcaccctgca---gttcttcatcacttttgctgtctatctgaccatttgattagcatttgatttttgcagTTATTGGAGATGTTGATGAATAATATTGGAGAACCTGTTCACAGACAGGTGATTGATAATGGGCTCCTCCCTATACTAGTGAAGATAGTAAAGAAAAAG
















Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|211276227|gb|FL230642.1|FL230642
EST:     AGAAGTGTATAGGGAGCAGGAGCAAGACCACTCAACTCTTTGCTGTTATG                         CTATTGGAGATGCTTCTGAATAATTGCGGAGAGCCTGTCCATAGGCAGGTC
genomic: AGAAGTGTATAGGGAGCAGGAGCAAGACCACTCAACTCTTTGCTGTTATGgtgagttgtt ... tttgattcagCTATTGGAGATGCTTCTGAATAATTGCGGAGAGCCTGTCCATAGGCAGGTC
EST: gi|149079652|gb|EE168649.2|EE168649
EST:     TCAACTCTTTGCTGTTATG                         CTATTGGAGAGGCTTCTGAATAA-TGCGGGAGAGCCTGTCCATAGGCAGGT
genomic: TCAACTCTTTGCTGTTATGgtgagttgtt ... tttgattcagCTATTGGAGATGCTTCTGAATAATTGC-GGAGAGCCTGTCCATAGGCAGGT
EST: gi|78116689|gb|DV535076.1|DV535076
EST:     AGAAGTGTATAGGGAGCAGGAGCAAGACCACTCAACTCTTTGCTGTTATG                         CTATTGGAGATGCTTCTGAATAATTGCGGAGAGCCTGTCCATAGGCAGGTC
genomic: AGAAGTGTATAGGGAGCAGGAGCAAGACCACTCAACTCTTTGCTGTTATGgtgagttgtt ... tttgattcagCTATTGGAGATGCTTCTGAATAATTGCGGAGAGCCTGTCCATAGGCAGGTC
EST: gi|211276228|gb|FL230643.1|FL230643
EST:     AGAAGTGTATAGGGAGCAGGAGCAAGACCACTCAACTCTTTGCTGTTATG                         CTATTGGAGATGCTTCTGAATAATTGCGGAGAGCCTGTCCATAGGCAGGTC
genomic: AGAAGTGTATAGGGAGCAGGAGCAAGACCACTCAACTCTTTGCTGTTATGgtgagttgtt ... tttgattcagCTATTGGAGATGCTTCTGAATAATTGCGGAGAGCCTGTCCATAGGCAGGTC
EST: gi|71428013|gb|DR809063.1|DR809063
EST:     GAAGTGTATAGGGAGCAGGAGCAAGACCACTCAACTC-TTGCTTGTTATG                         CTATTGGAGATGCTTCTGAATAATTGCGGAGAGCCTGTCCATAGGCAGGT
genomic: GAAGTGTATAGGGAGCAGGAGCAAGACCACTCAACTCTTTGC-TGTTATGgtgagttgtt ... tttgattcagCTATTGGAGATGCTTCTGAATAATTGCGGAGAGCCTGTCCATAGGCAGGT
EST: gi|89250673|gb|DY622459.1|DY622459
EST:     AGAAGTGTATAGGGAGCAGGAGCAAGACCACTCAACTCTTTGCTGTTATG                         CTATTGGAGATGCTTCTGAATAATTGCGGAGAGCCTGTCCATAGGCAGGTC
genomic: AGAAGTGTATAGGGAGCAGGAGCAAGACCACTCAACTCTTTGCTGTTATGgtgagttgtt ... tttgattcagCTATTGGAGATGCTTCTGAATAATTGCGGAGAGCCTGTCCATAGGCAGGTC
EST: gi|211276231|gb|FL230646.1|FL230646
EST:     AGAAGTGTATAGGGAGCAGGAGCWAGACCACTCAACTCTTTGCTGTTATG                         CTATTGGAGATGCTTCTGAAT
genomic: AGAAGTGTATAGGGAGCAGGAGCAAGACCACTCAACTCTTTGCTGTTATGgtgagttgtt ... tttgattcagCTATTGGAGATGCTTCTGAAT
EST: gi|9953455|gb|BE640038.1|BE640038
EST:     GCAAGACCACTCAACTCTTTGCTGTTATG                         CTGTTGGAGATGCTTCTGAATAATTGCGGAGAGCCTGTCCATAGGCAGGTC
genomic: GCAAGACCACTCAACTCTTTGCTGTTATGgtgagttgtt ... tttgattcagCTATTGGAGATGCTTCTGAATAATTGCGGAGAGCCTGTCCATAGGCAGGTC
EST: gi|74245588|gb|DT653502.1|DT653502
EST:     AGAAGTGTATAGGGAGCAGGAGCAAGACCACTCGACTCTTTGCTGTTATG                         CTATTGGAGATGCTTCTGAATAATTGCGGAGAGCCTGTCCATAGGCAGGTC
genomic: AGAAGTGTATAGGGAGCAGGAGCAAGACCACTCAACTCTTTGCTGTTATGgtgagttgtt ... tttgattcagCTATTGGAGATGCTTCTGAATAATTGCGGAGAGCCTGTCCATAGGCAGGTC
EST: gi|78107222|gb|DV525640.1|DV525640
EST:     GAAGTGTATA-GGAGCAGGGAGCAAGACCACTCAACTCTTTGCTGTTATG                         CTATTGGAGATGCTTCTGAATAATTGCGGAGAGCCTGTCCATAGGCAGGTC
genomic: GAAGTGTATAGGGAGCA-GGAGCAAGACCACTCAACTCTTTGCTGTTATGgtgagttgtt ... tttgattcagCTATTGGAGATGCTTCTGAATAATTGCGGAGAGCCTGTCCATAGGCAGGTC
EST: gi|71421501|gb|DR805467.1|DR805467
EST:     AGAAGTGTATAGGGAGCAGGAGCAAGACCACTCAACTCTTTGCTGTTATG                         CTATTGGAGATGCTTCTGAATAATTGCGGAGAGCCTGTCCATAGGCAGGTC
genomic: AGAAGTGTATAGGGAGCAGGAGCAAGACCACTCAACTCTTTGCTGTTATGgtgagttgtt ... tttgattcagCTATTGGAGATGCTTCTGAATAATTGCGGAGAGCCTGTCCATAGGCAGGTC
EST: gi|149083865|gb|EE173240.2|EE173240
EST:     AGAAGTGTATAGGGAGCAGGAGCAAGACCACTCAACTCTTTGCTGTTATG                         CTATTGGAGATGCTTCTGAATAATTGCGGAGAGCCTGTCCATAGGCAGGTC
genomic: AGAAGTGTATAGGGAGCAGGAGCAAGACCACTCAACTCTTTGCTGTTATGgtgagttgtt ... tttgattcagCTATTGGAGATGCTTCTGAATAATTGCGGAGAGCCTGTCCATAGGCAGGTC
EST: gi|149079653|gb|EE168650.2|EE168650
EST:     AGAAGTGTATAGGGAGCAGGAGCAAGACCACTCAACTCTTTGCTGTTATG                         CTATTGGAGATGCTTCTGAATAATTGCGGAGAGCCTGTCCATAGGCAGGTC
genomic: AGAAGTGTATAGGGAGCAGGAGCAAGACCACTCAACTCTTTGCTGTTATGgtgagttgtt ... tttgattcagCTATTGGAGATGCTTCTGAATAATTGCGGAGAGCCTGTCCATAGGCAGGTC
EST: gi|149088094|gb|EE177262.2|EE177262
EST:     AGAAGTGTATAGGGAGCAGGAGCAAGACCACTCAACTCTTTGCTGTTATG                         CTATTGGAGATGCTTCTGAATAATTGCGGAGAGCCTGTCCATAGGCAGGTC
genomic: AGAAGTGTATAGGGAGCAGGAGCAAGACCACTCAACTCTTTGCTGTTATGgtgagttgtt ... tttgattcagCTATTGGAGATGCTTCTGAATAATTGCGGAGAGCCTGTCCATAGGCAGGTC
EST: gi|93015305|gb|EB640825.1|EB640825
EST:     AGAACTGTATAGGGAGCAGGAGCAAGACCACTCAACTCTTTGCTGTTATG                         CTATTGGAGATGCTTCTGAATAATTGCGGAGAGCCTGTCCATAGGCAGGTC
genomic: AGAAGTGTATAGGGAGCAGGAGCAAGACCACTCAACTCTTTGCTGTTATGgtgagttgtt ... tttgattcagCTATTGGAGATGCTTCTGAATAATTGCGGAGAGCCTGTCCATAGGCAGGTC
EST: gi|71320275|gb|DR796886.1|DR796886
EST:     TAGGGAGCAGGAGCAAGCCCACTCAACTCTTTGCTGTTATG                         CTATTGGAGATGCTTCTGAAT-ATTGCGGAGAGCCTGTCCATAGGCAGGTC
genomic: TAGGGAGCAGGAGCAAGACCACTCAACTCTTTGCTGTTATGgtgagttgtt ... tttgattcagCTATTGGAGATGCTTCTGAATAATTGCGGAGAGCCTGTCCATAGGCAGGTC
EST: gi|211276224|gb|FL230639.1|FL230639
EST:     AGAAGTGTATAGGGAGCAGGAGCAAGACCACTCAACTCTTTGCTGTTATG                         CTATTGGAGATGCTTCTGAATAATTGCGGAGAGCCTGTCCATAGGCAGGTC
genomic: AGAAGTGTATAGGGAGCAGGAGCAAGACCACTCAACTCTTTGCTGTTATGgtgagttgtt ... tttgattcagCTATTGGAGATGCTTCTGAATAATTGCGGAGAGCCTGTCCATAGGCAGGTC
EST: gi|76291818|gb|DV031386.1|DV031386
EST:     AGAAGTGTATAGGGAGCAGGAGCAAGACCACTCAACTCTTTGCTGTTATG                         CTATTGGAGATGCTTCTGAATAATTGCGGAGAGCCTGTCCATAGGCAGGTC
genomic: AGAAGTGTATAGGGAGCAGGAGCAAGACCACTCAACTCTTTGCTGTTATGgtgagttgtt ... tttgattcagCTATTGGAGATGCTTCTGAATAATTGCGGAGAGCCTGTCCATAGGCAGGTC
EST: gi|88752284|gb|DY536425.1|DY536425
EST:     AGAAGTGTATAGGGAGCAGGAGCAAGACCACTCAACTCTTTGCTGTTATG                         CTATTGGAGATGCTTCTGAATAATTGCGGAGAGCCTGTCCATAGGCAGGTC
genomic: AGAAGTGTATAGGGAGCAGGAGCAAGACCACTCAACTCTTTGCTGTTATGgtgagttgtt ... tttgattcagCTATTGGAGATGCTTCTGAATAATTGCGGAGAGCCTGTCCATAGGCAGGTC
EST: gi|76281750|gb|DV021318.1|DV021318
EST:     AGAAGTGTATAGGGAGCAGGAGCAAGACCACTCAACTCTTTGCTGTTATG                         CTATTGGAGATGCTTCTGAATAATTGCGGAGAGCCTGTCCATAGGCAGGTC
genomic: AGAAGTGTATAGGGAGCAGGAGCAAGACCACTCAACTCTTTGCTGTTATGgtgagttgtt ... tttgattcagCTATTGGAGATGCTTCTGAATAATTGCGGAGAGCCTGTCCATAGGCAGGTC
EST: gi|76924364|gb|DV169917.1|DV169917
EST:     AGAAGTGTATAGGGAGCAGGAGCAAGACCACTCAACTCTTTGCTGTTATG                         CTATTGGAGATGCTTCTGAATAATTGCGGAGAGCCTGTCCATAGGCAGGTC
genomic: AGAAGTGTATAGGGAGCAGGAGCAAGACCACTCAACTCTTTGCTGTTATGgtgagttgtt ... tttgattcagCTATTGGAGATGCTTCTGAATAATTGCGGAGAGCCTGTCCATAGGCAGGTC
EST: gi|71326004|gb|DR799684.1|DR799684
EST:     AGAAGTGTATAGGGAGCAGGAGCAAGACCACTCAACTCTTTGCTGTTATG                         CTATTAGAGATGCTTCTGAATATTTGCGGAGAGCCTGTCCATAGGCAGGTC
genomic: AGAAGTGTATAGGGAGCAGGAGCAAGACCACTCAACTCTTTGCTGTTATGgtgagttgtt ... tttgattcagCTATTGGAGATGCTTCTGAATAATTGCGGAGAGCCTGTCCATAGGCAGGTC
EST: gi|149105966|gb|EE291599.2|EE291599
EST:     AGAAGTGTATAGGGAGCAGGAGCAAGACCACTCAACTCTTTGCTGTTATG                         CTATTGGAGATGCTTCTGAATAATTGCGGAGAGCCTGTCCATAGGCAGGTC
genomic: AGAAGTGTATAGGGAGCAGGAGCAAGACCACTCAACTCTTTGCTGTTATGgtgagttgtt ... tttgattcagCTATTGGAGATGCTTCTGAATAATTGCGGAGAGCCTGTCCATAGGCAGGTC
EST: gi|76924362|gb|DV169916.1|DV169916
EST:     TTTGCTGTTATG                         CTATTGGAGATGCTTCTGAATAATTGCGGAGAGCCTGTCCATAGGCAGGTC
genomic: TTTGCTGTTATGgtgagttgtt ... tttgattcagCTATTGGAGATGCTTCTGAATAATTGCGGAGAGCCTGTCCATAGGCAGGTC
EST: gi|211276230|gb|FL230645.1|FL230645
EST:     AGAAGTGTATAGGGAGCAGGAGCAAGACCACTCAACTCTTTGCTGTTATG                         CTATTGGGAGATGCTTCTG
genomic: AGAAGTGTATAGGGAGCAGGAGCAAGACCACTCAACTCTTTGCTGTTATGgtgagttgtt ... tttgattcagCTATTGG-AGATGCTTCTG
EST: gi|71428014|gb|DR809064.1|DR809064
EST:     AGAAGTGTATAGGGAGCAGGAGCAAGACCACTCAACTCTTTGCTGTTATG                         CTATTGGAGATGCTTCTGAATAATTGCGGAGAGCCTGTCCATAGGCAGGTC
genomic: AGAAGTGTATAGGGAGCAGGAGCAAGACCACTCAACTCTTTGCTGTTATGgtgagttgtt ... tttgattcagCTATTGGAGATGCTTCTGAATAATTGCGGAGAGCCTGTCCATAGGCAGGTC
EST: gi|211276222|gb|FL230637.1|FL230637
EST:     AGAAGTGTATAGGGAGCAGGAGCAAGACCACTCAACTCTTTGCTGTTATG                         CTATTGGAGATGCTTCTGAATAATTGCGGAG
genomic: AGAAGTGTATAGGGAGCAGGAGCAAGACCACTCAACTCTTTGCTGTTATGgtgagttgtt ... tttgattcagCTATTGGAGATGCTTCTGAATAATTGCGGAG
EST: gi|211276225|gb|FL230640.1|FL230640
EST:     AGAAGTGTATAGGGAGCAGGAGCAAGACCACTCAACTCTTTGCTGTTATG                         CTATTGGAGATGCTTCTGAATAATTGCGGAGAGCCTG
genomic: AGAAGTGTATAGGGAGCAGGAGCAAGACCACTCAACTCTTTGCTGTTATGgtgagttgtt ... tttgattcagCTATTGGAGATGCTTCTGAATAATTGCGGAGAGCCTG
EST: gi|149102742|gb|EE288091.2|EE288091
EST:     AGAAGTGTATAGGGAGCAGGAGCAAGACCACTCAACTCTTTGCTGTTATG                         CTATTGGAGATGCTTCTGAATAATTGCGGAGAGCCTGTCCATAGGCAGGTC
genomic: AGAAGTGTATAGGGAGCAGGAGCAAGACCACTCAACTCTTTGCTGTTATGgtgagttgtt ... tttgattcagCTATTGGAGATGCTTCTGAATAATTGCGGAGAGCCTGTCCATAGGCAGGTC
EST: gi|78091791|gb|DV520165.1|DV520165
EST:     AGAAGTGTATAGGGAGCAGGAGCAAGACCACTCAACTCTTTGCTGTTATG                         CTATTGGAGATGCTTCTGAATAATTGCGGAGAGCCTGTCCATAGGCAGGTC
genomic: AGAAGTGTATAGGGAGCAGGAGCAAGACCACTCAACTCTTTGCTGTTATGgtgagttgtt ... tttgattcagCTATTGGAGATGCTTCTGAATAATTGCGGAGAGCCTGTCCATAGGCAGGTC
EST: gi|149085134|gb|EE174639.2|EE174639
EST:     GTATAGGGAGCAGGAGCAAGACCACTCACCTCTTTGCTGTTATG                         CTATTGGAGATGCTTCTGAATAATTGCGGAGAGCCTGTCCATAGGCAGGTC
genomic: GTATAGGGAGCAGGAGCAAGACCACTCAACTCTTTGCTGTTATGgtgagttgtt ... tttgattcagCTATTGGAGATGCTTCTGAATAATTGCGGAGAGCCTGTCCATAGGCAGGTC
EST: gi|76927739|gb|DV171347.1|DV171347
EST:     GAAGTGTATAGGGAGCAGGGAGCAAGACCCCTCACCTCTTTGCTGTTATG                         CTATGGGAGATGCTTCTGAATAA-TGCGGGAGAGCCTGTCCATAGGCAGGT
genomic: GAAGTGTATAGGGAGCA-GGAGCAAGACCACTCAACTCTTTGCTGTTATGgtgagttgtt ... tttgattcagCTATTGGAGATGCTTCTGAATAATTGC-GGAGAGCCTGTCCATAGGCAGGT
EST: gi|86465690|gb|DY232063.1|DY232063
EST:     AGAAGTGTATAGGGAGCAGGAGCAAGACCACTCAACTCTTTGCTGTTATG                         CTATTGGAGATGCTTCTGAATAATTGCGGAGAGCCTGTCCATAGGCAGGAC
genomic: AGAAGTGTATAGGGAGCAGGAGCAAGACCACTCAACTCTTTGCTGTTATGgtgagttgtt ... tttgattcagCTATTGGAGATGCTTCTGAATAATTGCGGAGAGCCTGTCCATAGGCAGGTC
EST: gi|148938287|gb|EC882591.2|EC882591
EST:     AGAAGTGTATAGGGAGCAGGAGCAAGACCACTCAACTCTTTGCTGTTATG                         CTATTGGAAGATGCCTTCTGAATAATTGCGGAGAGCCTG
genomic: AGAAGTGTATAGGGAGCAGGAGCAAGACCACTCAACTCTTTGCTGTTATGgtgagttgtt ... tttgattcagCTATTGGA-GATGC-TTCTGAATAATTGCGGAGAGCCTG
EST: gi|76282168|gb|DV021736.1|DV021736
EST:     AGAAGTGTATAGGGAGCAGGAGCAAGACCACTCAACTCTTTGCTGTTATG                         CTATTGGAGATGCTTCTGAATAATTGCGGAGAGCCTGTCCATAGGCAGGTC
genomic: AGAAGTGTATAGGGAGCAGGAGCAAGACCACTCAACTCTTTGCTGTTATGgtgagttgtt ... tttgattcagCTATTGGAGATGCTTCTGAATAATTGCGGAGAGCCTGTCCATAGGCAGGTC
EST: gi|149088092|gb|EE287276.2|EE287276
EST:     AGAAGTGTATAGGGAGCAGGAGCAAGACCACTCAACTCTTTGCTGTTATG                         CTATTGGAGATGCTTCTGAATAA-TGACGGAGAGCCTGTCCATAGGCAGGT
genomic: AGAAGTGTATAGGGAGCAGGAGCAAGACCACTCAACTCTTTGCTGTTATGgtgagttgtt ... tttgattcagCTATTGGAGATGCTTCTGAATAATTG-CGGAGAGCCTGTCCATAGGCAGGT
EST: gi|71326005|gb|DR799685.1|DR799685
EST:     AGAAGTGTATAGGGAGCAGGAGCAAGACCACTCAACTCTTTGCTGTTATG                         CTATTGGAGATGCTTCTGAATAATTGCGGAGAGCCTGTCCATAGGCAGGTC
genomic: AGAAGTGTATAGGGAGCAGGAGCAAGACCACTCAACTCTTTGCTGTTATGgtgagttgtt ... tttgattcagCTATTGGAGATGCTTCTGAATAATTGCGGAGAGCCTGTCCATAGGCAGGTC
EST: gi|211276226|gb|FL230641.1|FL230641
EST:     AGAAGTGTATAGGGAGCAGGAGCAAGACCACTCAACTCTTTGCTGTTATG                         CTATTGGAGATGCTTCTGAATAATT
genomic: AGAAGTGTATAGGGAGCAGGAGCAAGACCACTCAACTCTTTGCTGTTATGgtgagttgtt ... tttgattcagCTATTGGAGATGCTTCTGAATAATT
EST: gi|149059924|gb|EE157051.2|EE157051
EST:     AGAAGTGTATAGGGAGCAGGAGCAAGACCACTCAACTCTTTGCTGTTATG                         CTATTGGAGATGCTTCTGAATAATTGCGGAGAGCCTGTCCATAGGCAGGTC
genomic: AGAAGTGTATAGGGAGCAGGAGCAAGACCACTCAACTCTTTGCTGTTATGgtgagttgtt ... tttgattcagCTATTGGAGATGCTTCTGAATAATTGCGGAGAGCCTGTCCATAGGCAGGTC
EST: gi|86472431|gb|DY238801.1|DY238801
EST:     AGAAGTGTATAGGGAGCAGGAGCAAGACCACTCATCTCTTTGCTGTTATG                         CTATTGGAGATGCTTCTGAATAATTGCGGAGAGCCTGTCCATAGGCAGGTC
genomic: AGAAGTGTATAGGGAGCAGGAGCAAGACCACTCAACTCTTTGCTGTTATGgtgagttgtt ... tttgattcagCTATTGGAGATGCTTCTGAATAATTGCGGAGAGCCTGTCCATAGGCAGGTC
EST: gi|74245587|gb|DT653501.1|DT653501
EST:     AGAAGTGTATAGGGAGCAGGAGCAAGACCACTCAACTCTTTGCTGTTATG                         CTATTGGAGATGCTTCTGAATAATTGCGGAGAGCCTGTCCATAGGCAGGTC
genomic: AGAAGTGTATAGGGAGCAGGAGCAAGACCACTCAACTCTTTGCTGTTATGgtgagttgtt ... tttgattcagCTATTGGAGATGCTTCTGAATAATTGCGGAGAGCCTGTCCATAGGCAGGTC
EST: gi|78091790|gb|DV520164.1|DV520164
EST:     TCAACTCTTTGCTGTTATG                         CTATTGGAGATGCTTCTGAATAA-TGCGGGAGAGCCTGTCCATAGACAGAT
genomic: TCAACTCTTTGCTGTTATGgtgagttgtt ... tttgattcagCTATTGGAGATGCTTCTGAATAATTGC-GGAGAGCCTGTCCATAGGCAGGT
EST: gi|149085242|gb|EE174748.2|EE174748
EST:     TGTATAGGGAGCAGGAGCAAGACCACTCAACTCTTTGCTGTTATG                         CTATTGGAGATGCTTCTGAATAA-TGNCGGAGAGCCTGTCCATAGGCAGGT
genomic: TGTATAGGGAGCAGGAGCAAGACCACTCAACTCTTTGCTGTTATGgtgagttgtt ... tttgattcagCTATTGGAGATGCTTCTGAATAATTG-CGGAGAGCCTGTCCATAGGCAGGT
EST: gi|76281749|gb|DV021317.1|DV021317
EST:     AGGGAGCAGGAGCAAGACCACTCAACTCTTTGCTGTTATG                         CTATTGGAGATGCTTCTGAATA-TTGCGGAGAGCCTGTCCATAGGCAGGTC
genomic: AGGGAGCAGGAGCAAGACCACTCAACTCTTTGCTGTTATGgtgagttgtt ... tttgattcagCTATTGGAGATGCTTCTGAATAATTGCGGAGAGCCTGTCCATAGGCAGGTC
EST: gi|71421504|gb|DR805468.1|DR805468
EST:     AGAAGTGTATAGGGAGCAGGAGCAAGACCACTCAACTCTTTGCTGTTATG                         CTATTGGAGATGCTTCTGAATAATTGCGGAGAGCCTGTCCATAGGCAGGTC
genomic: AGAAGTGTATAGGGAGCAGGAGCAAGACCACTCAACTCTTTGCTGTTATGgtgagttgtt ... tttgattcagCTATTGGAGATGCTTCTGAATAATTGCGGAGAGCCTGTCCATAGGCAGGTC
EST: gi|149105965|gb|EE291598.2|EE291598
EST:     AGAAGTGTATAGGGAGCAGGAGCAAGACCACTCAACTCTTTGCTGTTATG                         CTATTGGAGATGCTTCTGAATAATTGCGGAGAGCCTGTCCATAGGCAGGTC
genomic: AGAAGTGTATAGGGAGCAGGAGCAAGACCACTCAACTCTTTGCTGTTATGgtgagttgtt ... tttgattcagCTATTGGAGATGCTTCTGAATAATTGCGGAGAGCCTGTCCATAGGCAGGTC
EST: gi|149095623|gb|EE174749.2|EE174749
EST:     AGAAGTGTATAGGGAGCAGGAGCAAGACCACTCAACTCTTTGCTGTTATG                         CTATTGGAGATGCTTCTGAATAATTGCGGAGAGCCTGTCCATAGGCAGGTC
genomic: AGAAGTGTATAGGGAGCAGGAGCAAGACCACTCAACTCTTTGCTGTTATGgtgagttgtt ... tttgattcagCTATTGGAGATGCTTCTGAATAATTGCGGAGAGCCTGTCCATAGGCAGGTC
EST: gi|101391434|gb|EB817652.1|EB817652
EST:     AGAAGTGTATAGGGAGCAGGAGCAAGACCACTCAACTCTTTGCTGTTATG                         CTATTGGAGATGCTTCTGAATAATTGCGGAGAGCCTGTCCATAGGCAGGTC
genomic: AGAAGTGTATAGGGAGCAGGAGCAAGACCACTCAACTCTTTGCTGTTATGgtgagttgtt ... tttgattcagCTATTGGAGATGCTTCTGAATAATTGCGGAGAGCCTGTCCATAGGCAGGTC
EST: gi|93017402|gb|EB642922.1|EB642922
EST:     AGGGAGCAGGAGCAAGACCACTCCACCTCTTTGCTGTTATG                         CTATTGGAGATGCTTCTGAATAATTGCGGAGAGCCTGTCCATAGCCAGGTC
genomic: AGGGAGCAGGAGCAAGACCACT-CAACTCTTTGCTGTTATGgtgagttgtt ... tttgattcagCTATTGGAGATGCTTCTGAATAATTGCGGAGAGCCTGTCCATAGGCAGGTC

RNA-Seq data


 ATGC   Supported by RNA-Seq exonic block that spans over the splice site

 atgs   Truncated intron sequence

Each block is as long as the maximal overhang of any read spanning the junction.
The score is the number of alignments spanning the junction.


Found data for 4 RNA-Seq libraries.


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 420

GAAAGCGAAGGATGTGATCAAGTCTGTAAAGAAGTGTATAGGGAGCAGGAGCAAGACCACTCAACTCTTTGCTGTTATGgtgagttgtt ... tttgattcagCTATTGGAGATGCTTCTGAATAATTGCGGAGAGCCTGTCCATAGGCAGGTCATTGATAATGGCCTTCTTCCAATACTTGTGAAGATAGTGAAGAAAAAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 245

GAAAGCGAAGGATGTGATCAAGTCTGTAAAGAAGTGTATAGGGAGCAGGAGCAAGACCACTCAACTCTTTGCTGTTATGgtgagttgtt ... tttgattcagCTATTGGAGATGCTTCTGAATAATTGCGGAGAGCCTGTCCATAGGCAGGTCATTGATAATGGCCTTCTTCCAATACTTGTGAAGATAGTGAAGAAAAAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 205

GAAAGCGAAGGATGTGATCAAGTCTGTAAAGAAGTGTATAGGGAGCAGGAGCAAGACCACTCAACTCTTTGCTGTTATGgtgagttgtt ... tttgattcagCTATTGGAGATGCTTCTGAATAATTGCGGAGAGCCTGTCCATAGGCAGGTCATTGATAATGGCCTTCTTCCAATACTTGTGAAGATAGTGAAGAAAAAG


Block sizes: 47 (upstream exon), 47 (downstream exon)
Score: 269

GAAAGCGAAGGATGTGATCAAGTCTGTAAAGAAGTGTATAGGGAGCAGGAGCAAGACCACTCAACTCTTTGCTGTTATGgtgagttgtt ... tttgattcagCTATTGGAGATGCTTCTGAATAATTGCGGAGAGCCTGTCCATAGGCAGGTCATTGATAATGGCCTTCTTCCAATACTTGTGAAGATAGTGAAGAAAAAG




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtgtttttatggttaagctatagtcttgattcagattcacttctatttgattcagCTATTGGAGATGCTTCTGAATAATTGCGGAGAGCCTGTCCATAGGCAGGTCATTGATAATGGCCTTCTTCCAATACTTGTGAAGATAGTGAAGAAAAAG
                                       cttctattt  CT-rich tract
                                           tatttgatt  TA-rich tract
















Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
catatgtttttaaattaattagctcacattacataatgtgcgaatgtgtttttatggttaagctatagtcttgattcagattcacttctatttgattcagCTATTGGAGATGCTTCTGAATAATTGCGGAGAGCCTGTCCATAGGCAGGTCATTGATAATGGCCTTCTTCCAATACTTGTGAAGATAGTGAAGAAAAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - tgttttt
- - - - - - - - - - -gctcaca
- - - - - - - - - - - - - - - - - aatgtgc
- - - - - - - - - - - - - - - - - - - - - - tgtgttt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgattca